Basic Information
VIS ID
TVIS30001766
Fusion event
HIV-ANK3 integration
Validated
No
Detection method
QiaQuick PCR and Sequencing
Data source
download(RID)
Sample type
Cell line
Disease
HIV-infected disease (HID)
Quality evaluation
Normal
Reported year
2013
PubMed ID
23953889
Virus Sequence
Virus name
HIV
Reference genome
Not given
Host Sequence
Chromosome
chr10
Cytoband
q21.2
Reference genome
GRCh37/hg19
Start
62249349/60489591 (Hg38)
End
62249349/60489591 (Hg38)
Orient
+
Location type
Intronic
Fragile sites / regions
FRA10C
Target gene
ANK3
miRNAs that regulate target gene
hsa-mir-218-5p ; hsa-mir-8088 ; hsa-mir-598-5p ; hsa-mir-216b-3p ; hsa-mir-8485 ; hsa-mir-603 ; hsa-mir-503-5p ; hsa-mir-34a-5p
Nearest miRNA
hsa-mir-1265/Upstream/3185032; hsa-mir-107/Downstream/2883366;
Nearest TSS
ENST00000439456/Upstream/99861; ENST00000517854/Downstream/83072;
Nearest CpG islands
None/Target, chr10-CpG: 68/Upstream/582555, chr10-CpG: 60/Downstream/243436
Upstream sequence
aaccatctgtgatcatataactcaaagaaaagccacagttaacatttagcacatttccttctagtttttCTGTAAACATAAACAGGTATATTAATTGGTA
Downstream sequence
TTACTATACATAGTTCAAATTCATCTTTCACCATGACTGTGTTGCTTTTCAATATAATTCATGTATATACAACAAAAGGCTCtttaaatattaatatata
Reference
Sherrill-Mix, S., et al. HIV latency and integration site placement in five cell-based models.2013, Retrovirology 10: 90.
Curate